1. One LED should be your power light (Labeled PLED) and one should be your HDD activity light (labeled IDE_LED)
2. Most cases do not include an internal speaker some manufactures provide them with the MB most do not. its not a critical component to operate the computer unless you have a problem.
3. Those fans are meant to be connected to the power supply with the standard Molex connector and controlled using the included switches.
Edit: The connections for your LED's and Case switches are diagrammed in the owners manual on page 56 of the PDF document. I found this online here
Edited by Sneakycyber, 17 February 2008 - 07:49 PM.